Rice non-specific lipid transfer protein: The 1.6 Å crystal structure in the unliganded state reveals a small hydrophobic cavity

Journal of Molecular Biology

Volumn 276, Issue 2, 1998, Pages 437-448

  Lee, Jae Young ^a   Min, Kyeongsik ^a   Cha, Hoon ^a   Shin, Dong Hae ^a   Hwang, Kwang Yeon ^a   Suh, Se Won ^a  

^a Dept Chem Coll Nat Sci Seoul N ^*  (South Korea)

Author keywords

Crystal structure; Hydrophobic cavity; Non specific lipid transfer protein; Probable amylase protease inhibitor; Rice protein

Indexed keywords

STEROL CARRIER PROTEIN 2; SULFATE; SULFONIC ACID DERIVATIVE; VEGETABLE PROTEIN; WATER;

ARTICLE; CARBOXY TERMINAL SEQUENCE; CRYSTAL STRUCTURE; MAIZE; NONHUMAN; PRIORITY JOURNAL; PROTEIN CONFORMATION; PROTEIN FOLDING; PROTEIN STRUCTURE; RICE; X RAY CRYSTALLOGRAPHY;

ZEA MAYS;

EID: 0032548996     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1997.1550     Document Type: Article

References (50)

1. Barton G.J. ALSCRIPT a tool to format multiple sequence alignments. Protein Eng. 6:1993;37-40
2. Baud F., Pebay-Peyroula E., Cohen-Addad C., Odani S., Lehmann M.S. Crystal structure of hydrophobic protein from soybean a member of a new cysteine-rich family. J. Mol. Biol. 231:1993;877-887
3. Bernhard W.R., Somerville C.R. Coidentity of putative amylase inhibitors from barley and finger millet with phospholipid transfer proteins inferred from amino acid sequence homology. Arch. Biochem. Biophys. 269:1989;695-697
4. Breu V., Guerbette F., Kader J.C., Kannangara C.G., Svensson B., Wettstein-Knowles P. A 10 kDa barley basic protein transfers phosphatidylcholine from liposomes to mitochondria. Carlsberg. Res. Commun. 54:1989;81-84
5. Brünger A.T. X-PLOR Manual, Version 3.1, A System for X-ray Crystallography and NMR. 1992;Yale University Press, New Haven, CT
6. Brünger A.T., Kuriyan J., Karplus M. Crystallographic R factor refinement by molecular dynamics. Science. 235:1987;458-460
7. Campos F.A.P., Richardson M. The complete amino acid sequence of the α-amylase inhibitor I-2 from seeds of ragi (Indian finger millet, Eleusine coracana Gaertn.). FEBS Letters. 167:1984;221-225
8. Castellano E.E., Oliva G., Navaza J. Fast rigid-body refinement for molecular-replacement techniques. J. Appl. Crystallog. 25:1992;281-284
9. The CCP4 suite programs for protein crystallography. Acta Crystallog. sect. D. 50:1994;760-763
10. Douady D., Grosbois M., Guerbette F., Kader J. Purification of a basic phospholipid transfer protein from maize seedlings. Biochim. Biophys. Acta. 710:1982;143-153
11. Douady D., Guerbette F., Kader J. Purification of phospholipid transfer protein from seeds using a two-step chromatographic procedure. Physiol. Veg. 23:1985;373-380
12. Gausing K. Lipid transfer protein genes specifically expressed in barley leaves and coleoptiles. Planta. 192:1994;574-580
13. 1H-NMR data. Eur. J. Biochem. 226:1994;413-422
14. Gomar J., Petit M.C., Sodano P., Sy D., Marion D., Kader J.C., Vovelle F., Ptak M. Solution structure and lipid binding of a nonspecific lipid transfer protein extracted from maize seeds. Protein Sci. 5:1996;565-577
15. Heinemannn B., Anderson K.V., Nielsen P.R., Bech L.M., Poulsen F.M. Structure in solution of a four-helix lipid binding protein. Protein Sci. 5:1996;13-23
16. Hwang K.Y., Kim K.K., Min K., Eom S.H., Yu Y.G., Kim S., Sweet R.M., Suh S.W. Crystallization and preliminary X-ray crystallographic analysis of probable amylase/protease inhibitor-B from rice seeds. J. Mol. Biol. 229:1993;255-257
17. Jones T.A., Zou J.Y., Cowan S.W., Kjeldgaard M. Improved methods for building protein models in electron density maps and the location of errors in these models. Acta Crystallog. sect. A. 47:1991;110-119
18. Kabsch W. Evaluation of single-crystal X-ray diffraction data from a position-sensitive detector. J. Appl. Crystallog. 21:1988;916-924
19. Kader J.C. Lipid-transfer proteins in plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 47:1996;627-654
20. Kader J.C., Julienne M., Vergnolle C. Purification and characterization of a spinach-leaf protein capable of transferring phospholipids from liposomes to mitochondria or chloroplasts. Eur. J. Biochem. 139:1984;411-416
21. Kleywegt G.J., Jones T.A. Detection, delineation, measurement and display of cavities in macromolecular structures. Acta Crystallog. sect. D. 50:1994;178-185
22. Koradi R., Billeter M., Wüthrich K. MOLMOL a program for display and analysis of macromolecular structures. J. Mol. Graph. 14:1996;51-55
23. Kraulis P.J. MOLSCRIPT a program to produce both detailed and schematic plots of protein structures. J. Appl. Crystallog. 24:1991;946-950
24. Laskowski R.A., MacArthur M.W., Moss D.S., Thornton J.M. PROCHECK a program to check the stereochemical quality of protein structures. J. Appl. Crystallog. 26:1993;283-291
25. Lerche M.H., Kragelund B.B., Bech L.M., Poulsen F.M. Barley lipid-transfer protein complexed with palmitoyl CoA the structure reveals a hydrophobic binding site that can expand to fit both large and small lipid-like ligands. Structure. 5:1997;291-306
26. Luzzati V. Traitement statistique des erreurs dans la determinationn des structures cristallines. Acta Crystallog. 5:1952;802-810
27. Matthews B.W. Solvent content of protein crystals. J. Mol. Biol. 33:1968;491-497
28. Meijer E.A., De Vries S.C., Sterk P., Gadella D.W., Wirtz K.W.A., Hendriks T. Characterization of the non-specific lipid transfer protein EP2 from carrot (Daucus carota L.). Mol. Cell. Biochem. 123:1993;159-166
29. Messerschmidt A., Pflugrath J.W. Crystal orientation and X-ray pattern prediction routines for area-detector diffractometer systems in macromolecular crystallography. J. Appl. Crystallog. 20:1987;306-315
30. Molina A., Garcia-Olmedo F. Developmental and pathogen-induced expression of three barley genes encoding lipid transfer proteins. Plant J. 4:1993;983-991
31. Molina A., Segura A., Garcia-Olmedo F. Lipid transfer proteins (nsLTPs) from barley and leaves are potent inhibitors of bacterial and fungal plant pathogens. FEBS Letters. 316:1993;119-122
32. Mundy J., Rogers J.C. Selective expression of a probable amylase/protein inhibitor in barley aleurone cells Comparison to the barley amylase/subtilisin inhibitor. Planta. 169:1986;51-63
33. Navaza J. On the computation of the fast rotation function. Acta Crystallog. sect. D. 49:1993;588-591
34. Navaza J. AMoRe an automated package for molecular replacement. Acta Crystallog. sect. A. 50:1994;157-163
35. Needleman S.B., Wunsch C.D. A general method applicable to the search for similarities in the amino acid sequence of two proteins. J. Mol. Biol. 48:1970;443-453
36. Nicholls A., Bharadwaj R., Honig B. GRASP graphical representation and analysis of surface properties. Biophys. J. 64:1993;166-170
37. Park K.D., Hwang K.Y., Lee S.Y., Kim K.K., Eom S.H., Chung C.H., Fowler A., Suh S.W. Purification and characterization of probable amylase/protease inhibitor-B protein from rice seeds. Korean Biochem. J. 24:1991;308-314
38. Pyee J., Yu H., Kolattukudy P.E. Identification of a lipid transfer protein as the major protein in the surface wax of broccoli leaves. Arch. Biochem. Biophys. 331:1994;460-468
39. Sack J.S. CHAIN a crystallographic modeling program. J. Mol. Graph. 6:1988;244-245
40. Sali A., Blundell T.L. Comparative protein modelling by satisfaction of spatial restraints. J. Mol. Biol. 234:1993;779-815
41. Shin D.H., Lee J.Y., Hwang K.Y., Kim K.K., Suh S.W. High-resolution crystal structure of the non-specific lipid-transfer protein from maize seedlings. Structure. 3:1995;189-199
42. 1H NMR studies of a wheat phospholipid transfer protein sequential resonance assignments and secondary structure. Biochemistry. 30:1991;11600-11608
43. Sterk P., Booij H., Schellekens G.A., Van Kammen A., De Vries S.C. Cell specific expression of the carrot EP2 lipid transfer protein gene. The Plant Cell. 3:1991;907-921
44. Svensson B., Asano K., Jonassen I., Poulsen F.M., Mundy J., Svendsen I. A 10 kDa barley seed protein homologous with an α-amylase inhibitor from Indian finger millet. Carlsberg Res. Commun. 51:1986;493-500
45. Takishima K., Watanabe S., Yamada M., Mamiya G. The amino-acid sequence of the nonspecific lipid transfer protein from germinated caster bean endosperms. Biochim. Biophys. Acta. 870:1986;248-255
46. Terras F.R.G., Goderis I.J., Van Leuvren F., Vanderleyden J., Cammue B.P.A., Broekaert W.F. In vitro antifungal activity of a radish (Raphanus sativus L.) seed protein homologus to nonspecific lipid transfer proteins. Plant Physiol. 100:1992;1055-1058
47. Tsuboi S., Osafune T., Nishimura M., Yamada M. Nonspecific lipid transfer protein in castor bean cotyledon cells Subcellular localization and a possible role in lipid metabolism. J. Biochem. 111:1992;500-508
48. Vignols F., Lung G., Pammi S., Tremousaygue D., Grellet F., Kader J.C., Puigdomenech P., Delseny M. Characterization of a rice gene coding for a lipid transfer protein. Gene. 142:1994;265-270
49. Weissmann L. Strategies for extracting isomorphous and anomalous signals. Sayre D. Computational Crystallography. 1982;56-63 Oxford University Press (Clarendon), Oxford
50. Yu Y.G., Chung C.H., Fowler A., Suh S.W. Amino acid sequence of a probable amylase/protease inhibitor from rice seeds. Arch. Biochem. Biophys. 265:1988;465-475